NR_all_94729.10

Members (50)
History
Heat map

#	IFE	Molecule	Organism	Source	Title	Method	Å	Date
1	4NLF\|1\|A (rep)	23S ribosomal RNA Sarcin Ricin Loop			2'-trifluoromethylthio-2'-deoxycytidine-modified SRL	X-ray diffraction	1	2014-11-19
2	5D99\|1\|A	RNA (27-MER) hairpin from sarcin-ricin domain of E. coli 23S rRNA	Enterobacteria phage L1	Viruses	3DW4 redetermined by direct methods starting from random phase angles	X-ray diffraction	0.97	2016-04-13
3	6Y0Y\|1\|A	RNA (27-MER)	synthetic construct	Synthetic	Sarcin Ricin Loop, mutant C2666U	X-ray diffraction	0.95	2021-02-17
4	1Q9A\|1\|A	Sarcin/ricin 23S rRNA			Crystal structure of the sarcin/ricin domain from E.coli 23S rRNA at 1.04 resolution	X-ray diffraction	1.04	2003-11-25
5	7QP2\|1\|A	RNA (27-MER)	synthetic construct	Synthetic	1-deazaguanosine modified-RNA Sarcin Ricin Loop	X-ray diffraction	0.9	2022-07-20
6	4NMG\|1\|A	23S ribosomal RNA Sarcin Ricin Loop			2'-Trifluoromethylthio-2'-deoxyuridine-modified SRL	X-ray diffraction	1.01	2014-11-19
7	6ZYB\|1\|A	Sarcin-Ricin Loop RNA from Ecoli with a C2667-2'-OCF3 modification	synthetic construct	Synthetic	Sarcin-Ricin Loop RNA from Ecoli with a C2667-2'-OCF3 modification	X-ray diffraction	0.9	2020-12-16
8	3DW4\|1\|A	Sarcin/Ricin Domain from E. Coli 23 S rRNA			Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-OCH3 modified	X-ray diffraction	0.97	2009-03-24
9	3DW6\|1\|A	Sarcin/Ricin Domain from E. Coli 23 S rRNA			Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-SECH3 modified	X-ray diffraction	1	2009-03-24
10	7L3R\|1\|A	RNA (27-MER)	synthetic construct	Synthetic	23S Sarcin Ricin Loop with a 3-deazapurine A2670	X-ray diffraction	1.01	2021-05-05
11	4Y27\|1\|A	27-mer 23S Sarcin-Ricil Loop	Escherichia coli	Bacteria	E.coli 23S Sarcin-Ricil Loop, modified with a 2-Me on G2661 and a methylphosphonate on A2662	X-ray diffraction	1	2015-11-18
12	7JJE\|1\|A	RNA (27-MER)	synthetic construct	Synthetic	Sarcin-ricin loop with guanosine dithiophosphate residue.	X-ray diffraction	1.25	2020-12-23
13	3DVZ\|1\|A	Sarcin/Ricin Domain from E. Coli 23 S rRNA			Crystal Structure of the Sarcin/Ricin Domain from E. coli 23 S rRNA	X-ray diffraction	1	2009-03-24
14	4NXH\|1\|A	23S ribosomal RNA Sarcin Ricin Loop	Escherichia coli	Bacteria	2'-Trifluoromethylthiouridine-modified E. coli 23S rRNA Sarcin Ricin Loop	X-ray diffraction	1.16	2014-12-10
15	5NQI\|1\|A	E.Coli 27-mer SRL RNA	Escherichia coli	Bacteria	E.coli 16S rRNA Sarcin-Ricin Loop containing a 5-hydroxymethylcytosine modification	X-ray diffraction	0.85	2017-07-26
16	3S7C\|1\|A	Ecoli 23 S rRNA Sarcin Ricin loop			Crystal structure of a 2'-azido-uridine-modified RNA	X-ray diffraction	1.1	2012-04-11
17	5MRX\|1\|A	RNA (27-MER)	Escherichia coli	Bacteria	27-nt SRL with a 5-hydroxymethyl cytidine modification	X-ray diffraction	0.85	2018-01-17
18	7QSH\|1\|A	23S ribosomal RNA Sarcin Ricin Loop 27-nucleotide fragment	synthetic construct	Synthetic	23S ribosomal RNA Sarcin Ricin Loop 27-nt fragment containing a Xanthosine residue at position 2648	X-ray diffraction	0.86	2023-01-25
19	3DW5\|1\|A	Sarcin/Ricin Domain from E. Coli 23 S rRNA			Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23S rRNA, U2656-OCH3 modified	X-ray diffraction	0.96	2009-03-24
20	3DW7\|1\|A	Sarcin/Ricin Domain from E. Coli 23 S rRNA			Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2656-SeCH3 modified	X-ray diffraction	1	2009-03-24
21	483D\|1\|A	SARCIN/RICIN RRNA DOMAIN			CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA	X-ray diffraction	1.11	1999-10-08
22	3S8U\|1\|A	Ecoli 23 S rRNA Sarcin Ricin loop	Escherichia coli	Bacteria	Crystal structure of a 2-azido-adenine-modified RNA	X-ray diffraction	1.2	2012-04-11
23	7JJD\|1\|A	RNA (27-MER)	synthetic construct	Synthetic	Sarcin-ricin loop with guanosine monothiophosphate residue.	X-ray diffraction	1.21	2020-12-23
24	1MSY\|1\|A	SARCIN/RICIN DOMAIN FROM 23 S RRNA			GUAA tetraloop mutant of Sarcin/Ricin domain from E. Coli 23 S rRNA	X-ray diffraction	1.41	2003-02-25
25	480D\|1\|A	SARCIN/RICIN DOMAIN FROM 23 S RRNA			CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA	X-ray diffraction	1.5	1999-10-08
26	6Y0T\|1\|B	RNA (27-MER)	synthetic construct	Synthetic	Sarcin Ricin Loop, mutant C2666A U2653G C2667A	X-ray diffraction	1.393	2021-02-17
27	6Y0T\|1\|A	RNA (27-MER)	synthetic construct	Synthetic	Sarcin Ricin Loop, mutant C2666A U2653G C2667A	X-ray diffraction	1.393	2021-02-17
28	7M3V\|1\|A	RNA (27-MER)	synthetic construct	Synthetic	RNA bulged-G motif	X-ray diffraction	2.19	2022-03-23
29	7JJF\|1\|A	RNA/DNA (27-mer)	Escherichia coli	Bacteria	Sarcin-ricin loop with modified residue.	X-ray diffraction	1.2	2020-12-23
30	1JBR\|1\|D	31-mer SRD RNA analog			Crystal Structure of the Ribotoxin Restrictocin and a 31-mer SRD RNA Inhibitor	X-ray diffraction	2.15	2001-10-26
31	7EEN\|1\|A	DNA/RNA (27-MER)	synthetic construct	Synthetic	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-ray diffraction	1.7	2022-03-23
32	7EEN\|1\|B	DNA/RNA (27-MER)	synthetic construct	Synthetic	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-ray diffraction	1.7	2022-03-23
33	7EEM\|1\|A	RNA (27-MER)	synthetic construct	Synthetic	RNA bulged-G motif	X-ray diffraction	2.593	2022-03-23
34	1JBT\|1\|C	29-MER SARCIN/RICIN DOMAIN RNA ANALOG			CRYSTAL STRUCTURE OF RIBOTOXIN RESTRICTOCIN COMPLEXED WITH A 29-MER SARCIN/RICIN DOMAIN RNA ANALOG	X-ray diffraction	2.7	2001-10-26
35	6ZXZ\|1\|B	Sarcin-Ricin Loop RNA from Ecoli with a A2670-2'-OCF3 modification	synthetic construct	Synthetic	Sarcin-Ricin Loop RNA from Ecoli with a A2670-2'-OCF3 modification	X-ray diffraction	2.44	2020-12-16
36	7EEN\|1\|D	DNA/RNA (27-MER)	synthetic construct	Synthetic	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-ray diffraction	1.7	2022-03-23
37	1JBT\|1\|D	29-MER SARCIN/RICIN DOMAIN RNA ANALOG			CRYSTAL STRUCTURE OF RIBOTOXIN RESTRICTOCIN COMPLEXED WITH A 29-MER SARCIN/RICIN DOMAIN RNA ANALOG	X-ray diffraction	2.7	2001-10-26
38	1JBS\|1\|D	29-mer sarcin/ricin domain RNA analog			Crystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analog	X-ray diffraction	1.97	2001-10-26
39	7EEN\|1\|C	DNA/RNA (27-MER)	synthetic construct	Synthetic	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-ray diffraction	1.7	2022-03-23
40	6ZXZ\|1\|A	Sarcin-Ricin Loop RNA from Ecoli with a A2670-2'-OCF3 modification	synthetic construct	Synthetic	Sarcin-Ricin Loop RNA from Ecoli with a A2670-2'-OCF3 modification	X-ray diffraction	2.44	2020-12-16
41	6ZXZ\|1\|C	Sarcin-Ricin Loop RNA from Ecoli with a A2670-2'-OCF3 modification	synthetic construct	Synthetic	Sarcin-Ricin Loop RNA from Ecoli with a A2670-2'-OCF3 modification	X-ray diffraction	2.44	2020-12-16
42	1JBS\|1\|C	29-mer sarcin/ricin domain RNA analog			Crystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analog	X-ray diffraction	1.97	2001-10-26
43	7EEO\|1\|A	DNA/RNA (27-MER)	synthetic construct	Synthetic	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-ray diffraction	2.701	2022-03-23
44	7EEO\|1\|B	DNA/RNA (27-MER)	synthetic construct	Synthetic	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-ray diffraction	2.701	2022-03-23
45	7UCR\|1\|A	Sarcin-Ricin loop RNA	Homo sapiens	Eukarya	Joint X-ray/neutron structure of the Sarcin-Ricin loop RNA	X-ray diffraction	1	2022-07-20
46	3EQ3\|1\|D	Fragment H95 of the 23S rRNA	Escherichia coli	Bacteria	Model of tRNA(Trp)-EF-Tu in the ribosomal pre-accommodated state revealed by cryo-EM	Electron microscopy	9	2008-12-16
47	3EP2\|1\|D	Fragment H95 of the 23S rRNA	Escherichia coli	Bacteria	Model of Phe-tRNA(Phe) in the ribosomal pre-accommodated state revealed by cryo-EM	Electron microscopy	9	2008-12-16
48	3DEG\|1\|I	50S RNA helix 95	Escherichia coli	Bacteria	Complex of elongating Escherichia coli 70S ribosome and EF4(LepA)-GMPPNP	Electron microscopy	10.9	2008-08-19
49	1EG0\|1\|M	HELIX 95 OF 23S RRNA	Escherichia coli	Bacteria	FITTING OF COMPONENTS WITH KNOWN STRUCTURE INTO AN 11.5 A CRYO-EM MAP OF THE E.COLI 70S RIBOSOME	Electron microscopy	11.5	2000-03-06
50	3EQ4\|1\|D	Fragment H95 of the 23S rRNA	Escherichia coli	Bacteria	Model of tRNA(Leu)-EF-Tu in the ribosomal pre-accommodated state revealed by cryo-EM	Electron microscopy	12	2008-12-16

Release history

Release	3.267	3.268	3.269	3.270	3.271	3.272	3.273	3.274	3.275	3.276	3.277	3.278
Date	2023-01-25	2023-02-01	2023-02-08	2023-02-15	2023-02-22	2023-03-01	2023-03-08	2023-03-15	2023-03-22	2023-03-29	2023-04-05	2023-04-12

Parents

This class	Parent classes	Release id	Intersection	Added to this class	Only in parent
NR_all_94729.10	NR_all_94729.9	3.267	(49) 6ZXZ\|1\|B, 1EG0\|1\|M, 6ZXZ\|1\|A, 6Y0Y\|1\|A, 6Y0T\|1\|B, 6Y0T\|1\|A, 5NQI\|1\|A, 5MRX\|1\|A, 5D99\|1\|A, 4Y27\|1\|A, 4NXH\|1\|A, 4NMG\|1\|A, 4NLF\|1\|A, 483D\|1\|A, 480D\|1\|A, 3S8U\|1\|A, 3S7C\|1\|A, 7UCR\|1\|A, 3EQ4\|1\|D, 7QP2\|1\|A, 3EQ3\|1\|D, 7M3V\|1\|A, 3EP2\|1\|D, 7L3R\|1\|A, 3DW7\|1\|A, 7JJF\|1\|A, 3DW6\|1\|A, 7JJE\|1\|A, 3DW5\|1\|A, 7JJD\|1\|A, 3DW4\|1\|A, 7EEO\|1\|B, 3DVZ\|1\|A, 7EEO\|1\|A, 3DEG\|1\|I, 7EEN\|1\|D, 1Q9A\|1\|A, 7EEN\|1\|C, 1MSY\|1\|A, 7EEN\|1\|B, 1JBT\|1\|D, 7EEN\|1\|A, 1JBT\|1\|C, 7EEM\|1\|A, 1JBS\|1\|D, 6ZYB\|1\|A, 1JBS\|1\|C, 6ZXZ\|1\|C, 1JBR\|1\|D	(1) 7QSH\|1\|A	(0)

Children

This class	Descendant classes	Release id	Intersection	Only in this class	Added to child

Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5

#S - ordering by similarity (same as in the heat map).

#S	PDB	Title	Method	Resolution	Length
1	1JBR\|1\|D	Crystal Structure of the Ribotoxin Restrictocin and a 31-mer SRD RNA Inhibitor	X-RAY DIFFRACTION	2.15	31
2	1JBT\|1\|C	CRYSTAL STRUCTURE OF RIBOTOXIN RESTRICTOCIN COMPLEXED WITH A 29-MER SARCIN/RICIN DOMAIN RNA ANALOG	X-RAY DIFFRACTION	2.7	29
3	1JBS\|1\|C	Crystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analog	X-RAY DIFFRACTION	1.97	17
4	1JBS\|1\|D	Crystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analog	X-RAY DIFFRACTION	1.97	17
5	1JBT\|1\|D	CRYSTAL STRUCTURE OF RIBOTOXIN RESTRICTOCIN COMPLEXED WITH A 29-MER SARCIN/RICIN DOMAIN RNA ANALOG	X-RAY DIFFRACTION	2.7	29
6	6Y0Y\|1\|A	Sarcin Ricin Loop, mutant C2666U	X-RAY DIFFRACTION	0.95	27
7	6Y0T\|1\|A	Sarcin Ricin Loop, mutant C2666A U2653G C2667A	X-RAY DIFFRACTION	1.393	30
8	6Y0T\|1\|B	Sarcin Ricin Loop, mutant C2666A U2653G C2667A	X-RAY DIFFRACTION	1.393	30
9	7EEM\|1\|A	RNA bulged-G motif	X-RAY DIFFRACTION	2.593	26
10	7EEO\|1\|A	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-RAY DIFFRACTION	2.701	14
11	7EEO\|1\|B	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-RAY DIFFRACTION	2.701	14
12	4NLF\|1\|A	2'-trifluoromethylthio-2'-deoxycytidine-modified SRL	X-RAY DIFFRACTION	1	28
13	4NMG\|1\|A	2'-Trifluoromethylthio-2'-deoxyuridine-modified SRL	X-RAY DIFFRACTION	1.01	36
14	3DW7\|1\|A	Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2656-SeCH3 modified	X-RAY DIFFRACTION	1	37
15	7QP2\|1\|A	1-deazaguanosine modified-RNA Sarcin Ricin Loop	X-RAY DIFFRACTION	0.9	32
16	483D\|1\|A	CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA	X-RAY DIFFRACTION	1.11	39
17	1Q9A\|1\|A	Crystal structure of the sarcin/ricin domain from E.coli 23S rRNA at 1.04 resolution	X-RAY DIFFRACTION	1.04	38
18	480D\|1\|A	CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA	X-RAY DIFFRACTION	1.5	27
19	3S7C\|1\|A	Crystal structure of a 2'-azido-uridine-modified RNA	X-RAY DIFFRACTION	1.1	32
20	3DW6\|1\|A	Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-SECH3 modified	X-RAY DIFFRACTION	1	28
21	5D99\|1\|A	3DW4 redetermined by direct methods starting from random phase angles	X-RAY DIFFRACTION	0.97	30
22	3DW4\|1\|A	Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-OCH3 modified	X-RAY DIFFRACTION	0.97	26
23	4Y27\|1\|A	E.coli 23S Sarcin-Ricil Loop, modified with a 2-Me on G2661 and a methylphosphonate on A2662	X-RAY DIFFRACTION	1	25
24	6ZYB\|1\|A	Sarcin-Ricin Loop RNA from Ecoli with a C2667-2'-OCF3 modification	X-RAY DIFFRACTION	0.9	30
25	7JJE\|1\|A	Sarcin-ricin loop with guanosine dithiophosphate residue.	X-RAY DIFFRACTION	1.25	29
26	7JJD\|1\|A	Sarcin-ricin loop with guanosine monothiophosphate residue.	X-RAY DIFFRACTION	1.21	29
27	3DVZ\|1\|A	Crystal Structure of the Sarcin/Ricin Domain from E. coli 23 S rRNA	X-RAY DIFFRACTION	1	35
28	7UCR\|1\|A	Joint X-ray/neutron structure of the Sarcin-Ricin loop RNA	X-RAY DIFFRACTION	1	56
29	3DW5\|1\|A	Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23S rRNA, U2656-OCH3 modified	X-RAY DIFFRACTION	0.96	32
30	5MRX\|1\|A	27-nt SRL with a 5-hydroxymethyl cytidine modification	X-RAY DIFFRACTION	0.85	34
31	5NQI\|1\|A	E.coli 16S rRNA Sarcin-Ricin Loop containing a 5-hydroxymethylcytosine modification	X-RAY DIFFRACTION	0.85	34
32	7JJF\|1\|A	Sarcin-ricin loop with modified residue.	X-RAY DIFFRACTION	1.2	27
33	4NXH\|1\|A	2'-Trifluoromethylthiouridine-modified E. coli 23S rRNA Sarcin Ricin Loop	X-RAY DIFFRACTION	1.16	32
34	7M3V\|1\|A	RNA bulged-G motif	X-RAY DIFFRACTION	2.19	27
35	3S8U\|1\|A	Crystal structure of a 2-azido-adenine-modified RNA	X-RAY DIFFRACTION	1.2	34
36	7L3R\|1\|A	23S Sarcin Ricin Loop with a 3-deazapurine A2670	X-RAY DIFFRACTION	1.01	30
37	7QSH\|1\|A	23S ribosomal RNA Sarcin Ricin Loop 27-nt fragment containing a Xanthosine residue at position 2648	X-RAY DIFFRACTION	0.86	34
38	7EEN\|1\|A	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-RAY DIFFRACTION	1.7	14
39	7EEN\|1\|C	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-RAY DIFFRACTION	1.7	14
40	7EEN\|1\|B	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-RAY DIFFRACTION	1.7	15
41	7EEN\|1\|D	Bulged-G motif composed of RNA, DNA and 2'-O-methyl RNA	X-RAY DIFFRACTION	1.7	14
42	6ZXZ\|1\|B	Sarcin-Ricin Loop RNA from Ecoli with a A2670-2'-OCF3 modification	X-RAY DIFFRACTION	2.44	25
43	6ZXZ\|1\|A	Sarcin-Ricin Loop RNA from Ecoli with a A2670-2'-OCF3 modification	X-RAY DIFFRACTION	2.44	25
44	6ZXZ\|1\|C	Sarcin-Ricin Loop RNA from Ecoli with a A2670-2'-OCF3 modification	X-RAY DIFFRACTION	2.44	25
45	3DEG\|1\|I	Complex of elongating Escherichia coli 70S ribosome and EF4(LepA)-GMPPNP	ELECTRON MICROSCOPY	10.9	29
46	1MSY\|1\|A	GUAA tetraloop mutant of Sarcin/Ricin domain from E. Coli 23 S rRNA	X-RAY DIFFRACTION	1.41	31
47	3EQ3\|1\|D	Model of tRNA(Trp)-EF-Tu in the ribosomal pre-accommodated state revealed by cryo-EM	ELECTRON MICROSCOPY	9	28
48	1EG0\|1\|M	FITTING OF COMPONENTS WITH KNOWN STRUCTURE INTO AN 11.5 A CRYO-EM MAP OF THE E.COLI 70S RIBOSOME	ELECTRON MICROSCOPY	11.5	26
49	3EP2\|1\|D	Model of Phe-tRNA(Phe) in the ribosomal pre-accommodated state revealed by cryo-EM	ELECTRON MICROSCOPY	9	28
50	3EQ4\|1\|D	Model of tRNA(Leu)-EF-Tu in the ribosomal pre-accommodated state revealed by cryo-EM	ELECTRON MICROSCOPY	12	28

Equivalence class NR_all_94729.10 Current

Release history

Parents

Children